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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggcgcggctgcgttgtgaggaacagacgaaaggggaggtgggcgcggctgcgttgcgaggaacagacgaaaggggaggcctagcgctgccggcgtgcatcagacgtacatgagctcatgctgttctgcttggtgcgtccttcctacgccgagcagGTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAGAAGTACCCCAAGCTCAAGGAGTTCCGCGAGGCCATGGCCAAGGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97448
intron # 14
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|14229691|gb|BG848507.1|BG848507
EST:     GCTCGCCTGCCCTCACCTTGCGCGGGTTTGTGGAGAAAGACTTCGAGCAG                         GTGGCTGAGTTTTGTG-ACCGGGCCGTGAACATCGCGGTGGACC
genomic: GCTCGCCTGCCCTCACCTCGCGCGGCTTTGTGGAGAAGGACTTCGAGCAGgtgggcgcgg ... cgccgagcagGTGGCTGAGTTT-GTGGACCGCGCCGTGAACATCGCGGTGGACC
EST: gi|161796862|gb|FC083218.1|FC083218
EST:     GCTCGCCCGCCCTCACCTCGCGCGGCTTTGTGGAGAAGGACTTCGAGCAG                         GTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTGAAGAAG
genomic: GCTCGCCTGCCCTCACCTCGCGCGGCTTTGTGGAGAAGGACTTCGAGCAGgtgggcgcgg ... cgccgagcagGTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAG
EST: gi|23363124|gb|BU650944.1|BU650944
EST:     AGGACTTCGAGCAG                         GTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAG
genomic: AGGACTTCGAGCAGgtgggcgcgg ... cgccgagcagGTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAG
EST: gi|15368219|gb|BI527645.1|BI527645
EST:     GCTCGCCTGCCCTCACCTCGCGCGGCTTTGTGGAGAAGGACTTCGAGCAG                         GTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAG
genomic: GCTCGCCTGCCCTCACCTCGCGCGGCTTTGTGGAGAAGGACTTCGAGCAGgtgggcgcgg ... cgccgagcagGTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAG
EST: gi|23363366|gb|BU651186.1|BU651186
EST:     GCTCGCCTGCCCTCACCTAGCGCGGCTTTGTGGAGAAGGACTTCGAGCAG                         GTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAG
genomic: GCTCGCCTGCCCTCACCTCGCGCGGCTTTGTGGAGAAGGACTTCGAGCAGgtgggcgcgg ... cgccgagcagGTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAG
EST: gi|161817251|gb|FC104090.1|FC104090
EST:     GCTCGCCCGCCCTCACCTCGCGCGGCTTTGTGGAGAAGGACTTCGAGCAG                         GTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTGAAGAAG
genomic: GCTCGCCTGCCCTCACCTCGCGCGGCTTTGTGGAGAAGGACTTCGAGCAGgtgggcgcgg ... cgccgagcagGTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agacgtacatgagctcatgctgttctgcttggtgcgtccttcctacgccgagcagGTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAGAAGTACCCCAAGCTCAAGGAGTTCCGCGAGGCCATGGCCAAGGAG
                                    tccttcctac  CT-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggcgcggctgcgttgtgaggaacagacgaaaggggaggtgggcgcggctgcgttgcgaggaacagacgaaaggggaggcctagcgctgccggcgtgcatcagacgtacatgagctcatgctgttctgcttggtgcgtccttcctacgccgagcagGTGGCTGAGTTTGTGGACCGCGCCGTGAACATCGCGGTGGACCTCAAGAAGAAGTACCCCAAGCTCAAGGAGTTCCGCGAGGCCATGGCCAAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG